Strain Fitness in Pseudomonas putida KT2440 around PP_5629

Experiment: 72hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO.

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Only strains with sufficient reads to estimate fitness are shown, but the strain fitness values are still rather noisy and may be biased towards zero. Strains near the edge of a gene are not shown as being associated with that gene (they are in grey). Strains in the central 10-90% of a gene are color coded by the insertion's strand. Usually, "+" means that the selectable marker is encoded on the forward strand, i.e., transcribed rightward.

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500 ntPP_3791 and PP_5629 are separated by 417 nucleotidesPP_5629 and PP_3792 are separated by 104 nucleotides PP_3791: PP_3791 - Site-specific recombinase, phage integrase family, at 4,320,138 to 4,320,764 _3791 PP_5629: PP_5629 - putative intracellular protease/amidase, at 4,321,182 to 4,321,751 _5629 PP_3792: PP_3792 - conserved protein of unknown function, at 4,321,856 to 4,321,990 _3792 Position (kb) 4321 4322Strain fitness (log2 ratio) -2 -1 0 1 2 3 4at 4320.193 kb on + strandat 4320.218 kb on + strand, within PP_3791at 4320.219 kb on - strand, within PP_3791at 4320.219 kb on - strand, within PP_3791at 4320.266 kb on - strand, within PP_3791at 4320.284 kb on + strand, within PP_3791at 4320.285 kb on - strand, within PP_3791at 4320.285 kb on - strand, within PP_3791at 4320.285 kb on - strand, within PP_3791at 4320.307 kb on + strand, within PP_3791at 4320.307 kb on + strand, within PP_3791at 4320.307 kb on + strand, within PP_3791at 4320.307 kb on + strand, within PP_3791at 4320.307 kb on + strand, within PP_3791at 4320.307 kb on + strand, within PP_3791at 4320.308 kb on - strand, within PP_3791at 4320.308 kb on - strand, within PP_3791at 4320.308 kb on - strand, within PP_3791at 4320.308 kb on - strand, within PP_3791at 4320.311 kb on + strand, within PP_3791at 4320.311 kb on + strand, within PP_3791at 4320.311 kb on + strand, within PP_3791at 4320.311 kb on + strand, within PP_3791at 4320.311 kb on + strand, within PP_3791at 4320.312 kb on - strand, within PP_3791at 4320.312 kb on - strand, within PP_3791at 4320.321 kb on + strand, within PP_3791at 4320.322 kb on - strand, within PP_3791at 4320.329 kb on + strand, within PP_3791at 4320.330 kb on - strand, within PP_3791at 4320.330 kb on - strand, within PP_3791at 4320.362 kb on - strand, within PP_3791at 4320.441 kb on + strand, within PP_3791at 4320.442 kb on - strand, within PP_3791at 4320.453 kb on + strand, within PP_3791at 4320.453 kb on + strand, within PP_3791at 4320.476 kb on + strand, within PP_3791at 4320.477 kb on - strand, within PP_3791at 4320.490 kb on - strand, within PP_3791at 4320.591 kb on + strand, within PP_3791at 4320.591 kb on + strand, within PP_3791at 4320.591 kb on + strand, within PP_3791at 4320.630 kb on + strand, within PP_3791at 4320.664 kb on - strand, within PP_3791at 4320.680 kb on + strand, within PP_3791at 4320.681 kb on - strand, within PP_3791at 4320.785 kb on + strandat 4320.854 kb on + strandat 4320.854 kb on + strandat 4320.876 kb on - strandat 4320.904 kb on - strandat 4320.938 kb on + strandat 4320.939 kb on - strandat 4320.942 kb on + strandat 4320.942 kb on + strandat 4320.943 kb on - strandat 4320.943 kb on - strandat 4320.972 kb on + strandat 4320.972 kb on + strandat 4320.973 kb on - strandat 4320.973 kb on - strandat 4321.047 kb on + strandat 4321.047 kb on + strandat 4321.047 kb on + strandat 4321.104 kb on + strandat 4321.104 kb on + strandat 4321.104 kb on + strandat 4321.105 kb on - strandat 4321.105 kb on - strandat 4321.105 kb on - strandat 4321.105 kb on - strandat 4321.117 kb on - strandat 4321.149 kb on + strandat 4321.149 kb on + strandat 4321.149 kb on + strandat 4321.230 kb on + strandat 4321.292 kb on + strand, within PP_5629at 4321.295 kb on + strand, within PP_5629at 4321.295 kb on + strand, within PP_5629at 4321.296 kb on - strand, within PP_5629at 4321.296 kb on - strand, within PP_5629at 4321.330 kb on + strand, within PP_5629at 4321.331 kb on - strandat 4321.341 kb on - strand, within PP_5629at 4321.448 kb on + strand, within PP_5629at 4321.448 kb on + strand, within PP_5629at 4321.448 kb on + strand, within PP_5629at 4321.449 kb on - strand, within PP_5629at 4321.449 kb on - strand, within PP_5629at 4321.574 kb on - strand, within PP_5629at 4321.612 kb on + strand, within PP_5629at 4321.612 kb on + strand, within PP_5629at 4321.613 kb on - strand, within PP_5629at 4321.613 kb on - strand, within PP_5629at 4321.636 kb on + strand, within PP_5629at 4321.636 kb on + strand, within PP_5629at 4321.636 kb on + strand, within PP_5629at 4321.637 kb on - strand, within PP_5629at 4321.637 kb on - strand, within PP_5629at 4321.637 kb on - strand, within PP_5629at 4321.661 kb on + strand, within PP_5629at 4321.662 kb on - strand, within PP_5629at 4321.697 kb on - strandat 4321.698 kb on + strandat 4321.698 kb on + strandat 4321.732 kb on + strandat 4321.732 kb on + strandat 4321.733 kb on - strandat 4321.733 kb on - strandat 4321.782 kb on + strandat 4321.782 kb on + strandat 4321.783 kb on - strandat 4321.783 kb on - strandat 4321.812 kb on + strandat 4321.838 kb on + strandat 4321.839 kb on - strandat 4321.957 kb on + strand, within PP_3792at 4321.957 kb on + strand, within PP_3792at 4321.957 kb on + strand, within PP_3792at 4321.957 kb on + strand, within PP_3792at 4321.958 kb on - strand, within PP_3792at 4322.031 kb on + strandat 4322.032 kb on - strandat 4322.032 kb on - strandat 4322.032 kb on - strandat 4322.131 kb on + strandat 4322.131 kb on + strandat 4322.131 kb on + strandat 4322.144 kb on + strandat 4322.144 kb on + strandat 4322.144 kb on + strandat 4322.144 kb on + strandat 4322.144 kb on + strandat 4322.144 kb on + strandat 4322.145 kb on - strandat 4322.200 kb on + strandat 4322.394 kb on + strandat 4322.455 kb on + strandat 4322.456 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction 72hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO.
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4,320,193 + +2.2
4,320,218 + PP_3791 0.13 -0.0
4,320,219 - PP_3791 0.13 +1.2
4,320,219 - PP_3791 0.13 +0.8
4,320,266 - PP_3791 0.20 +0.0
4,320,284 + PP_3791 0.23 +0.3
4,320,285 - PP_3791 0.23 -0.5
4,320,285 - PP_3791 0.23 -1.0
4,320,285 - PP_3791 0.23 +0.5
4,320,307 + PP_3791 0.27 +0.7
4,320,307 + PP_3791 0.27 -0.0
4,320,307 + PP_3791 0.27 +0.5
4,320,307 + PP_3791 0.27 -0.1
4,320,307 + PP_3791 0.27 -0.3
4,320,307 + PP_3791 0.27 -1.8
4,320,308 - PP_3791 0.27 +0.0
4,320,308 - PP_3791 0.27 +0.4
4,320,308 - PP_3791 0.27 -2.0
4,320,308 - PP_3791 0.27 +1.0
4,320,311 + PP_3791 0.28 +0.9
4,320,311 + PP_3791 0.28 -0.5
4,320,311 + PP_3791 0.28 -0.2
4,320,311 + PP_3791 0.28 +0.7
4,320,311 + PP_3791 0.28 +0.7
4,320,312 - PP_3791 0.28 -1.3
4,320,312 - PP_3791 0.28 +0.5
4,320,321 + PP_3791 0.29 +0.4
4,320,322 - PP_3791 0.29 +0.4
4,320,329 + PP_3791 0.30 +0.4
4,320,330 - PP_3791 0.31 +2.0
4,320,330 - PP_3791 0.31 +1.0
4,320,362 - PP_3791 0.36 -0.5
4,320,441 + PP_3791 0.48 -0.9
4,320,442 - PP_3791 0.48 +1.9
4,320,453 + PP_3791 0.50 -1.6
4,320,453 + PP_3791 0.50 -0.1
4,320,476 + PP_3791 0.54 -0.7
4,320,477 - PP_3791 0.54 -2.2
4,320,490 - PP_3791 0.56 +0.5
4,320,591 + PP_3791 0.72 +0.1
4,320,591 + PP_3791 0.72 +2.0
4,320,591 + PP_3791 0.72 -0.6
4,320,630 + PP_3791 0.78 -0.9
4,320,664 - PP_3791 0.84 -0.6
4,320,680 + PP_3791 0.86 -0.3
4,320,681 - PP_3791 0.87 -0.5
4,320,785 + +1.8
4,320,854 + -0.6
4,320,854 + -1.0
4,320,876 - +0.6
4,320,904 - +0.2
4,320,938 + +0.2
4,320,939 - +0.0
4,320,942 + -0.3
4,320,942 + -0.5
4,320,943 - +0.3
4,320,943 - +1.1
4,320,972 + -2.0
4,320,972 + -0.5
4,320,973 - -0.3
4,320,973 - -0.3
4,321,047 + -0.1
4,321,047 + -1.2
4,321,047 + -0.5
4,321,104 + +0.1
4,321,104 + -0.6
4,321,104 + +0.6
4,321,105 - -0.3
4,321,105 - -0.2
4,321,105 - +0.3
4,321,105 - +0.2
4,321,117 - +0.2
4,321,149 + -0.9
4,321,149 + -1.1
4,321,149 + +0.3
4,321,230 + +0.5
4,321,292 + PP_5629 0.19 -0.4
4,321,295 + PP_5629 0.20 +0.2
4,321,295 + PP_5629 0.20 -0.6
4,321,296 - PP_5629 0.20 +0.3
4,321,296 - PP_5629 0.20 -1.0
4,321,330 + PP_5629 0.26 -0.2
4,321,331 - +4.0
4,321,341 - PP_5629 0.28 -0.7
4,321,448 + PP_5629 0.47 -0.6
4,321,448 + PP_5629 0.47 -0.5
4,321,448 + PP_5629 0.47 -0.8
4,321,449 - PP_5629 0.47 -1.4
4,321,449 - PP_5629 0.47 -1.4
4,321,574 - PP_5629 0.69 +1.0
4,321,612 + PP_5629 0.75 +1.4
4,321,612 + PP_5629 0.75 -1.3
4,321,613 - PP_5629 0.76 -0.7
4,321,613 - PP_5629 0.76 -0.8
4,321,636 + PP_5629 0.80 +0.3
4,321,636 + PP_5629 0.80 -1.2
4,321,636 + PP_5629 0.80 -0.3
4,321,637 - PP_5629 0.80 -0.7
4,321,637 - PP_5629 0.80 +0.5
4,321,637 - PP_5629 0.80 +0.0
4,321,661 + PP_5629 0.84 +0.3
4,321,662 - PP_5629 0.84 -0.1
4,321,697 - +0.1
4,321,698 + -0.4
4,321,698 + -0.0
4,321,732 + +0.7
4,321,732 + +0.1
4,321,733 - +1.6
4,321,733 - -0.7
4,321,782 + +0.6
4,321,782 + -0.3
4,321,783 - +1.2
4,321,783 - +0.6
4,321,812 + -1.0
4,321,838 + -0.1
4,321,839 - -0.4
4,321,957 + PP_3792 0.75 -0.1
4,321,957 + PP_3792 0.75 -0.3
4,321,957 + PP_3792 0.75 -0.0
4,321,957 + PP_3792 0.75 +0.2
4,321,958 - PP_3792 0.76 +0.8
4,322,031 + +1.1
4,322,032 - -0.2
4,322,032 - -0.3
4,322,032 - -0.5
4,322,131 + +0.1
4,322,131 + +0.4
4,322,131 + -1.7
4,322,144 + +0.2
4,322,144 + +0.2
4,322,144 + +0.5
4,322,144 + -2.5
4,322,144 + +0.8
4,322,144 + -0.3
4,322,145 - +0.0
4,322,200 + +2.4
4,322,394 + -0.6
4,322,455 + +0.0
4,322,456 - -1.3

Or see this region's nucleotide sequence